Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85656	0.364
27DAP/17DAP	1.09323	0.859
39DAP/27DAP	1.02754	0.857
41DAP/39DAP	1.07744	0.833
42DAP/41DAP	0.97599	1
43DAP/42DAP	0.99464	0.937
47DAP/43DAP	1.1859	0.384
52DAP/47DAP	0.72297	0.257
57DAP/52DAP	1.2401	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80979	0.039
17DAP/reference	0.88134	0.104
27DAP/reference	1.07895	0.426
39DAP/reference	1.08243	0.434
41DAP/reference	0.85266	0.031
42DAP/reference	1.1578	0.089
43DAP/reference	0.9029	0.155
47DAP/reference	1.09477	0.142
52DAP/reference	1.29385	0.012
57DAP/reference	1.01819	0.952

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80828	0.103
27DAP/17DAP	1.00914	0.98
39DAP/27DAP	1.0053	1
41DAP/39DAP	1.08129	0.876
42DAP/41DAP	1.02121	1
43DAP/42DAP	1.03913	0.788
47DAP/43DAP	1.09612	0.65
52DAP/47DAP	0.99882	0.969
57DAP/52DAP	1.02414	1
57DAP/7DAP	0.85197	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94641	0.445
17DAP/reference	0.98364	0.599
27DAP/reference	1.0128	0.8
39DAP/reference	0.99794	0.745
41DAP/reference	0.89594	0.174
42DAP/reference	1.06722	0.405
43DAP/reference	1.09934	0.256
47DAP/reference	1.11255	1
52DAP/reference	0.88172	0.163
57DAP/reference	1.11116	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97516	0.706
17DAP/reference	1.04069	0.92
27DAP/reference	1.10169	0.283
39DAP/reference	1.22651	0.082
41DAP/reference	0.95115	0.348
42DAP/reference	0.96228	0.433
43DAP/reference	1.04409	1
47DAP/reference	0.92147	0.164
52DAP/reference	1.09902	0.069
57DAP/reference	0.9757	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94501	0.169
17DAP/reference	0.93038	0.342
27DAP/reference	0.93242	0.302
39DAP/reference	1.01586	1
41DAP/reference	0.88704	0.167
42DAP/reference	1.18311	0.163
43DAP/reference	1.00368	0.712
47DAP/reference	1.05083	0.877
52DAP/reference	1.03062	0.904
57DAP/reference	1.32032	0.098

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.43491	0.966
26DAP/20DAP	0.86332	0.512
34DAP/26DAP	1.10689	1
51DAP/34DAP	0.98495	0.901
52DAP/51DAP	1.2674	0.101
53DAP/52DAP	0.83278	0.183
55DAP/53DAP	1.31168	0.071
57DAP/55DAP	0.70216	0.075
62DAP/57DAP	1.5803	0.569
68DAP/62DAP	1.13095	1
68DAP/14DAP	1.13229	0.419

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91426	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.75796	0.058
Mature Green Tomato/Ripe Tomato	1.13033	0.881
Immature Eggplant/Mature Eggplant	0.47543	0.07
Ripe Pepper/Ripe Tomato	0.18613	0.224
Mature Eggplant/Ripe Tomato	0.66681	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.20239	0.742
1-1-2/M82	1.33784	1
12-2/M82	0.96007	0.955
12-4/M82	1.07598	1
1-3/M82	1.13269	0.255
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.99922	1
3-2/M82	1.14652
4-1-1/M82	1.28909	0.968
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.22328	1
5-3/M82	1.12735	0.378
6-2/M82	1.05439	1
6-3/M82	0.9179	1
7-1/M82	1.10147
7-2/M82	1.12381	1
9-3-2/M82	0.98148	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11693	0.493
IL2-6/WTpooled	0.98444	1
IL7-5/WTpooled	1.19342	0.75
IL7-3/WTpooled	1.11939	1
IL12-4/WTpooled	0.71924	0.581
IL1-4/WTpooled	1.0439	1
WT/WTpooled	0.8522	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.09734	0.222

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99815	1
DC3000/delta hrp 6h	0.97383	0.95
DC3000/delta hrp 12h	1.11063	1
DC3000/delta hrp 24h	0.84744	0.073

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.45684	0.25
DC3000 delta B/DC3000 delta AB	1.03636	0.636

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91022	1
Exp 36h	0.76777	0.699
Exp 60h	0.94823	0.855

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.98513	1
Var 0h	0.74661	1
Var 12h I row2-row1	1.00111	1
Var 12h NI row2-row1	1.14393	1
Var 36h I row2-row1	1.16475	1
Var 36h NI row2-row1	1.08217
Var 60h I row2-row1	1.14636	0.543
Var 60h NI row2-row1	1.14976	0.904
Time course 0hI-0hNI	0.98648	0.981
Time course 12hI-12hNI	0.87374	0.085
Time course 36hI-36hNI	0.86021	0.048
Time course 60hI-60hNI	0.90746	0.026

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.10163	0.261
transgenic ySAMdc/azygous control (breaker)	1.06504	1
transgenic ySAMdc/azygous control (red)	1.03179	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94604	0.122

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1961	0.239

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7658	0.172
Manapal/WT (break)	0.89147	1
Manapal/WT (red)	1.24547	0.164